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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGAAACTGTTCTGCGACAAGGACTACCCCGATAAGCCACCAACTGTTAGATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccaccatgttcatgttgtggctttgatgctcttcttcaccgtctgtattcgctctcctgttcagctagtctgctggcaaccagtgtaagaagagctaactgtcagtatcatgcatttcgtag

Basic information

species Physcomitrella patens
transcript PP1S490_20V6.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: LOC_Os12g41220.1 (Oryza sativa), 5'ss of exon 3
ATTGAAACTGTTCTGCGACAAGGACTACCCCGATAAGCCACCAACTGTTAGATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgta-accaccatgttcatgttgtggctttgatgctcttcttcaccgtctgt-attcgctctcctgttcagctagtctgctggcaaccagtgtaagaagagctaactgtcagtatcatgcatttcgtag
| |||| || |||||||||||||||||||| || | |||||||||||| | ||| || ||  | |||||||||||   ||| ||| | ||||  |||||||||   ||| |      || |   |  ||  | ||     |     ||  | ||| | |    |    | ||  |||  ||| | | | ||||                                   
ACTGAAGCTTTTCTGCGACAAGGACTACCCAGACAGGCCACCAACTGTAAAATTTCACTCAAGAATCAACATGACCTGTGTAAACCCAGAGAATGGATTGgtatgacacgagaaatttggttcagaattatttctaactcttgtgttcaattatttgattaattaa--aacttatcttttgg-agctaatgtag----------------------------------

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: LOC_Os09g12570.1 (Oryza sativa), 5'ss of exon 3
ATTGAAACTGTTCTGCGACAAGGACTACCCCGATAAGCCACCAACTGTTAGATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccaccatgttcatgttgtggctttgatgctcttcttcaccgtctgtattcgctctcctgttcagctagtctgctggcaaccagtgtaagaagagctaactgtcagtatcatgcatttcgtag
  |||| |||||||| |||||||||||||| || ||||||||| ||||  | || |||||  | ||||| ||| |   ||| ||    ||||| |||  ||||  | |      ||  | || | |   | | |  | |     ||      |    |  ||| |    || ||   |||    | |||     | ||                            
GCTGAAGCTGTTCTGTGACAAGGACTACCCAGAGAAGCCACCATCTGTCCGGTTTCATTCAAGAATCAATATGTCGTGTGTTAATCATGAGACTGGAGCGgtattctctcctcccaaat-gtagatgccaagtttatttattttgtgcaggctactccctctgattga-tattcatttggtg--ctgtgatcctatag----------------------------

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GRMZM2G056501_T05 (Zea mays), 5'ss of exon 3
ATTGAAACTGTTCTGCGACAAGGACTACCCCGATAAGCCACCAACTGTTAGATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccac--catgttcatgttgtggct-ttgatgctcttcttcaccgtctgtattcgctctcctgttcagctagtctgctggcaaccagtgtaagaagagctaactgtcagtatcatgcatttcgtag
  ||||  |||||||||||||||||||||| || ||||||||| | ||| |||| |||||  | || ||| | ||    || ||    || || ||| |||||||| |  |||||   ||| || |   ||| |||        |   || |  || | | |   |   | ||  |||| |         | ||    |    |                         
GCTGAAGTTGTTCTGCGACAAGGACTACCCTGAGAAGCCACCATCAGTTCGATTTCATTCAAGAATAAACTTAACATGCGTTAATCATGAAACTGGAGTGgtaacctcttcatgtctttgtggttgtggttggtgcagaatactagtttcag-gtttgatatttgggataccttctctgattttgctatatctattttggttgag------------------------

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GRMZM2G056501_T02 (Zea mays), 5'ss of exon 3
ATTGAAACTGTTCTGCGACAAGGACTACCCCGATAAGCCACCAACTGTTAGATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccaccatgttcatgttgtggctttgatgctcttcttcaccgtctgtattcgctctcctgttcagctagtctgctggcaaccagtgtaagaagagctaact--gtcagtatcatgcatttcgtag
  ||||  |||||||||||||||||||||| || ||||||||| | ||| |||| |||||  | || ||| | ||    || ||    || || ||| |||||||| |    |   | |||||| | || |  |  |    |      || |  | | |  | ||  |     || ||     |   | |    | | |||  |  ||     ||||| |        
GCTGAAGTTGTTCTGCGACAAGGACTACCCTGAGAAGCCACCATCAGTTCGATTTCATTCAAGAATAAACTTAACATGCGTTAATCATGAAACTGGAGTGgtaacctcttcatgtct-ttgtggttgtggt--tggtgcagaatactagtttcaggtttgatatttgggataccttct-----ctgattttgctatatctattttggttgaggtcatgtag-------

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: EFJ33318 (Selaginella moellendorffii), 5'ss of exon 3
ATTGAAACTGTTCTGCGACAAGGACTACCCCGATAAGCCACCAACTGTTAGATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccaccatgttcatgttgtggctttgatgctcttcttcaccgtct-gtattcgctctcctgttcagctagtctgctggcaaccagtgtaagaagagctaactgtcagtatcatgcatttcgtag
| | ||  ||| ||||||||| ||||| || ||||||||||||| |||  |||||||||| || ||||||||||||   || ||    ||||| |||   |||| |||     ||   ||      ||| | ||   |||    |||| || |  | | |    |||  |||||   ||    ||  ||| |  |||  ||  || |   | |  ||||        
ACTTAAGTTGTACTGCGACAAAGACTATCCGGATAAGCCACCAAGTGTGCGATTCCATTCGCGAATCAACATGACTTGCGTTAATCGCGAGACTGGAGCTgtaagcac-----tcgcatt------ttgtttcttggctttgtggtctagtttctggtgt----ttccactagtgatctt---acttgtgcagtaagcactcgcttttt-ttttttgca--------

upper sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: EFJ15952 (Selaginella moellendorffii), 5'ss of exon 3
ATTGAAACTGTTCTGCGACAAGGACTACCCCGATAAGCCACCAACTGTTAGATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccac-catgttc-atgttgtggctttgatg-ctcttcttcaccgtctgtattcgctctcctgttcagctagtctgc---tggcaaccagtgtaagaagagctaactgtcagtatcatgcatttcgtag
  | ||  ||| ||||||||| ||||| || ||||||||||||| |||  |||||||||| || ||||||||||||   || ||    ||||| |||   |||| ||| |   ||   | |  ||||||||  | ||  | |     || |  | | |   || |  |     |||  ||    |||  || ||||                                    
GCTTAAGTTGTACTGCGACAAAGACTATCCGGATAAGCCACCAAGTGTGCGATTCCATTCGCGAATCAACATGACTTGCGTTAATCGCGAGACTGGAGCTgtaagcactcgcattttgtttcttggctttgtggtctagtttctggtgtttccactagtgatcttacttgtgcagtaagcactcggcctccggtgttttc--------------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|208363724|gb|DC954695.1|DC954695
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|162260754|gb|FC435406.1|FC435406
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|208365088|gb|DC947324.1|DC947324
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|37821329|gb|BJ579395.1|BJ579395
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|67698924|gb|BJ959157.1|BJ959157
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|37843398|gb|BJ601406.1|BJ601406
EST:     CGGATCAACATGACTCATGTGAACTCGGAGACGGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATAC
genomic: CGGATCAACATGACTCATGTGAACTCGGAGAC-GGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATAC
EST: gi|162248627|gb|FC424480.1|FC424480
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|162211664|gb|FC387952.1|FC387952
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|67573475|gb|BJ946299.1|BJ946299
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|162277404|gb|FC453210.1|FC453210
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|37840937|gb|BJ598945.1|BJ598945
EST:     GATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|162224431|gb|FC399807.1|FC399807
EST:     ATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: ATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|162277403|gb|FC453209.1|FC453209
EST:     AGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: AGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|100446255|gb|CJ970554.1|CJ970554
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|162176507|gb|FC352976.1|FC352976
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|208388041|gb|DC941694.1|DC941694
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|162248628|gb|FC424481.1|FC424481
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|67696855|gb|BJ957088.1|BJ957088
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|18348930|gb|BJ180979.1|BJ180979
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|37835895|gb|BJ593907.1|BJ593907
EST:     ATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATAC
genomic: ATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGAC-GGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATAC
EST: gi|37834644|gb|BJ592656.1|BJ592656
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|15320319|gb|BI488125.1|BI488125
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|18355140|gb|BJ187199.1|BJ187199
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|37832091|gb|BJ590103.1|BJ590103
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|100447101|gb|CJ971400.1|CJ971400
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|162245980|gb|FC424378.1|FC424378
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
EST: gi|67575457|gb|BJ948281.1|BJ948281
EST:     GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTG                         GTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT
genomic: GATTCCATTCTCGGATCAACATGACTCATGTGAACTCGGAGACGGGATTGgtaaccacca ... catttcgtagGTTGATCCAAGATATTTTCCTTTGCTGGCAAATTGGCGCCGTAACCATACT